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All Journal Coreid Journal International Journal of Learning Media on Natural Science
Amelia, Silmi Rahma
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Biochemistry, Genetics & Molecular Biology Chemistry Computer Science & IT Environmental Science Other

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Investigating the Performance of Serial and Parallel Smith-Waterman Algorithm Implementations for Genetic Sequence Alignment Using OpenMPI Fitriani, Nita Dwi; Amelia, Silmi Rahma; Muttaqien, Fahdzi; Ivansyah, Atthar Luqman
CoreID Journal Vol. 2 No. 2 (2024): July 2024
Publisher : CV. Generasi Intelektual Digital

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.60005/coreid.v2i2.34

Abstract

Deoxyribonucleic acid (DNA) is composed of nucleotide chains containing nitrogenous bases, phosphate groups, and pentose sugars, with variations primarily occurring in the sequence of nitrogenous bases. The analysis of DNA sequences often employs the Smith-Waterman algorithm for sequence alignment, a fundamental technique in bioinformatics. This research evaluates the performance of the Smith-Waterman algorithm across varying sequence lengths (10, 102, 103, and 104) using both serial and parallel implementations with the OpenMPI library. The study focuses on measuring execution times and speedup on 4, 6, 10, 12, and 24 cores. Results indicate that while execution times increase with longer sequences, parallelization significantly reduces processing time for sequences longer than 102. However, smaller sequences exhibit higher overhead on shorter lengths. The findings underscore the importance of efficient parallel programming and task allocation strategies in optimizing computational performance for DNA sequence analysis.
Development of Augmented Reality-Based Learning Media on Atomic Absorption Spectrophotometer (AAS) Material Nasution, Nur Fauzi’ah; Farida, Ida; Sukmawardani, Yulia; Amelia, Silmi Rahma
International Journal of Learning Media on Natural Science (IJLENS) Vol. 2 No. `2 (2025): August (2025)
Publisher : CV. Generasi Intelektual Digital (GEN ID)

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Abstract

Atomic absorption spectrophotometer (AAS) instruments are not always found in universities or high schools, due to the high and complex maintenance and operation costs of these instruments. To overcome this, innovative learning media are needed that can visualize and facilitate understanding of concepts in AAS material. This study aims to describe the design of the learning media display, analyze the results of validation tests, and analyze the results of the feasibility test. The research method used is Design Based Research (DBR) with the ADDIE model approach. The results of the study are in the form of a learning media display design consisting of a home page (cover), a main menu consisting of learning objectives, instructions for use, materials, AR scans, quizzes, and compiler profiles. The material page consists of images about phenomena in everyday life and videos about the working principles of AAS, sample preparation processes, simulations of AAS data measurement and analysis, and data interpretation in the form of images and articles. The AR scan page consists of a menu of AAS components. The results of the validation test obtained an average value of 0.83, this indicates that the augmented reality-based learning media on AAS material is categorized as valid with high interpretation. Meanwhile, the results of the feasibility test obtained an average percentage value of 92.16%, this shows that augmented reality-based learning media on AAS material is very suitable for use as learning media.
Co-Authors Atthar Luqman Ivansyah Fitriani, Nita Dwi Ida Farida Muttaqien, Fahdzi Nasution, Nur Fauzi’ah Yulia Sukmawardani, Yulia